# R script for Peak Model
#  -- generated by MACS
p <- c(0.0369556152874,0.0432996376118,0.0499956895102,0.0562648119252,0.0628634939415,0.0630282737421,0.0629084338871,0.0632155235155,0.0633578333434,0.0630732136877,0.0633278733796,0.0634701832074,0.0625039743764,0.0624066044942,0.0621369648205,0.0616351354276,0.0616725853823,0.0613130658173,0.0616501154095,0.0611707559895,0.0610658961164,0.0599124375119,0.0604292468867,0.060751316497,0.0605640667235,0.0606090066692,0.0605565767326,0.0612007159533,0.0611557760076,0.0623092346121,0.0624740144127,0.0633278733796,0.0630207837512,0.0626163242405,0.0636649229718,0.0639944825731,0.0643540021381,0.0639869925821,0.064121812419,0.0632155235155,0.0632155235155,0.063275443443,0.0637023729265,0.0640169525459,0.0629533738327,0.0627361640955,0.0626088342496,0.0624740144127,0.0620545749202,0.0625039743764,0.0624815044036,0.0625788742858,0.062683734159,0.062796084023,0.062796084023,0.0632979134159,0.0633278733796,0.0635600630987,0.0635975130534,0.0633653233343,0.0633503433524,0.0634252432618,0.0630207837512,0.0630207837512,0.0631256436243,0.0624815044036,0.0624665244218,0.0625489143221,0.0628859639143,0.0626088342496,0.0623092346121,0.0626537741952,0.0627361640955,0.0623391945758,0.0619871650017,0.0622717846574,0.0623242145939,0.0622942546302,0.0622493146846,0.0628410239686,0.0629533738327,0.062796084023,0.0630058037693,0.0631855635518,0.0639345626456,0.0636948829356,0.0637098629174,0.0639046026818,0.0640693824825,0.0638896226999,0.0639570326184,0.0637323328903,0.063642452999,0.0640469125096,0.0638371927634,0.0641742423556,0.0642266722921,0.0643090621925,0.0645637218844,0.0650580612863,0.0651479411775,0.0652003711141,0.0654400508241,0.0654250708422,0.0656048306247,0.0660692100629,0.0660692100629,0.0660916800357,0.06532770096,0.065574870661,0.0657471404525,0.0659868201625,0.0662040298997,0.065934390226,0.0659418802169,0.0659044302622,0.0661066600176,0.0661890499179,0.0666833893198,0.0669080890479,0.0669605189845,0.0669829889573,0.0667358192563,0.0672001986945,0.0666983693016,0.066653429356,0.0667058592926,0.0665860194376,0.067020438912,0.0664736695735,0.0665710394557,0.0667582892291,0.0670429088848,0.0673125485585,0.0677095180783,0.0677993979695,0.0672750986039,0.0676121481961,0.0672750986039,0.0674623483773,0.0676046582051,0.0677170080692,0.0678892778608,0.067020438912,0.0676945380964,0.0677993979695,0.0681738975164,0.068106487598,0.0684360471992,0.0682937373714,0.0686307869636,0.0684884771358,0.0681439375526,0.0683911072536,0.0680840176251,0.0681888774983,0.0684809871449,0.0684510271811,0.0683012273623,0.0692224962477,0.068578357027,0.0685633770452,0.068825526728,0.0693797860574,0.069065206438,0.0690202664924,0.0692299862386,0.0688554866917,0.0690427364652,0.0680390776795,0.0683911072536,0.0685034571177,0.068098997607,0.0680091177158,0.0685109471086,0.0681289575708,0.0687955667642,0.0694846459305,0.0696269557583,0.0697318156315,0.0698965954321,0.0698441654955,0.0704957947071,0.0702785849699,0.0702111750515,0.0703984248249,0.0695146058943,0.0698291855137,0.069671895704,0.069664405713,0.0700089452962,0.0701287851512,0.0696494257312,0.0699640053505,0.0703984248249,0.0709377041725,0.071229813819,0.0707429644081,0.0706605745078,0.0709526841543,0.0707879043537,0.0704658347434,0.0705257546709,0.0703534848793,0.0700389052599,0.0696269557583,0.0693797860574,0.0691176363746,0.0686607469274,0.0680840176251,0.0677619480148,0.0682562874167,0.0686607469274,0.0682562874167,0.0687581168096,0.0685259270905,0.0686532569364,0.0686382769545,0.0689603465649,0.0691475963383,0.0691475963383,0.0689528565739,0.0693423361027,0.0697767555771,0.0693947660393,0.0697168356496,0.0701212951602,0.0706605745078,0.0707130044443,0.0709227241906,0.0710725240094,0.0711249539459,0.0703534848793,0.0701812150877,0.0698441654955,0.069544565858,0.0691625763202,0.0687506268186,0.0689603465649,0.0691026563927,0.0693198661299,0.0692973961571,0.069544565858,0.0693498260936,0.069791735559,0.0700164352871,0.0699415353777,0.0696569157221,0.0700089452962,0.0702561149971,0.0702785849699,0.0706980244625,0.0709751541272,0.0711773838825,0.0711474239187,0.0709451941634,0.071357143665,0.0722559425775,0.0721885326591,0.0721735526772,0.0722334726047,0.0723832724235,0.0726454221063,0.0731996814357,0.0728701218344,0.0738513106473,0.0736041409463,0.0734843010913,0.0727577719704,0.0725180922604,0.0725330722422,0.0728326718798,0.0726678920791,0.0726154621426,0.0729824716985,0.0726229521335,0.073169721472,0.0733120312998,0.0737764107379,0.0745254098317,0.0748324994602,0.0741658902667,0.0740984803482,0.0739861304842,0.0739561705204,0.0740535404026,0.0738438206564,0.0736865308467,0.0738213506835,0.0739936204751,0.0739411905386,0.0746377596958,0.0748924193877,0.0753942487805,0.0753493088349,0.0753268388621,0.0754242087442,0.0760458779921,0.0771319266781,0.0779932756359,0.0797234635426,0.0821202606427,0.084854107335,0.0873033343717,0.0908461000853,0.0948382652552,0.0991674800173,0.102433116066,0.105863531916,0.107728539659,0.109938086986,0.112132654331,0.112934083361,0.113578222582,0.11455941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m <- 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ycorr <- 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altd  <- c(198, 280)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('LUC-H3K18ac-vs-LUC-IgG.2x25mers.MACS-2.1.0.p1e-1_model.pdf',height=6,width=6)
plot(x,p,type='l',col=c('red'),main='Peak Model',xlab='Distance to the middle',ylab='Percentage')
lines(x,m,col=c('blue'))
legend('topleft',c('forward tags','reverse tags'),lty=c(1,1,1),col=c('red','blue'))
plot(xcorr,ycorr,type='l',col=c('black'),main='Cross-Correlation',xlab='Lag between + and - tags',ylab='Correlation')
abline(v=altd,lty=2,col=c('red'))
legend('topleft','alternative lag(s)',lty=2,col='red')
legend('right','alt lag(s) : 198,280',bty='n')
dev.off()